The PlantsP and PlantsT functional genomics databases

Jason H. Tchieu, Fariba Fana, J. Lynn Fink, Jeffrey Harper, T. Murlidharan Nair, R. Hannes Niedner, Douglas W. Smith, Kenneth Steube, Tobey M. Tam, Stella Veretnik, Degeng Wang, Michael Gribskov

Research output: Contribution to journalArticle

51 Citations (Scopus)

Abstract

PlantsP and PlantsT allow users to quickly gain a global understanding of plant phosphoproteins and plant membrane transporters, respectively, from evolutionary relationships to biochemical function as well as a deep understanding of the molecular biology of individual genes and their products. As one database with two functionally different web interfaces, PlantsP and PlantsT are curated plant-specific databases that combine sequence-derived information with experimental functional-genomics data. PlantsP focuses on proteins involved in the phosphorylation process (i.e., kinases and phosphatases), whereas PlantsT focuses on membrane transport proteins. Experimentally, PlantsP provides a resource for information on a collection of T-DNA insertion mutants (knockouts) in each kinase and phosphatase, primarily in Arabidopsis thaliana, and PlantsT uniquely combines experimental data regarding mineral composition (derived from inductively coupled plasma atomic emission spectroscopy) of mutant and wild-type strains. Both databases provide extensive information on motifs and domains, detailed information contributed by individual experts in their respective fields, and descriptive information drawn directly from the literature. The databases incorporate a unique user annotation and review feature aimed at acquiring expert annotation directly from the plant biology community. PlantsP is available at http://plantsp.sdsc.edu and PlantsT is available at http://plantst.sdsc.edu.

Original languageEnglish (US)
Pages (from-to)342-344
Number of pages3
JournalNucleic Acids Research
Volume31
Issue number1
DOIs
StatePublished - Jan 1 2003
Externally publishedYes

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Genomics
Databases
Membrane Transport Proteins
Phosphoric Monoester Hydrolases
Phosphotransferases
Atomic Spectrophotometry
Phosphoproteins
Arabidopsis
Minerals
Molecular Biology
Phosphorylation
Genes
Proteins

ASJC Scopus subject areas

  • Genetics

Cite this

Tchieu, J. H., Fana, F., Fink, J. L., Harper, J., Nair, T. M., Niedner, R. H., ... Gribskov, M. (2003). The PlantsP and PlantsT functional genomics databases. Nucleic Acids Research, 31(1), 342-344. https://doi.org/10.1093/nar/gkg025

The PlantsP and PlantsT functional genomics databases. / Tchieu, Jason H.; Fana, Fariba; Fink, J. Lynn; Harper, Jeffrey; Nair, T. Murlidharan; Niedner, R. Hannes; Smith, Douglas W.; Steube, Kenneth; Tam, Tobey M.; Veretnik, Stella; Wang, Degeng; Gribskov, Michael.

In: Nucleic Acids Research, Vol. 31, No. 1, 01.01.2003, p. 342-344.

Research output: Contribution to journalArticle

Tchieu, JH, Fana, F, Fink, JL, Harper, J, Nair, TM, Niedner, RH, Smith, DW, Steube, K, Tam, TM, Veretnik, S, Wang, D & Gribskov, M 2003, 'The PlantsP and PlantsT functional genomics databases', Nucleic Acids Research, vol. 31, no. 1, pp. 342-344. https://doi.org/10.1093/nar/gkg025
Tchieu JH, Fana F, Fink JL, Harper J, Nair TM, Niedner RH et al. The PlantsP and PlantsT functional genomics databases. Nucleic Acids Research. 2003 Jan 1;31(1):342-344. https://doi.org/10.1093/nar/gkg025
Tchieu, Jason H. ; Fana, Fariba ; Fink, J. Lynn ; Harper, Jeffrey ; Nair, T. Murlidharan ; Niedner, R. Hannes ; Smith, Douglas W. ; Steube, Kenneth ; Tam, Tobey M. ; Veretnik, Stella ; Wang, Degeng ; Gribskov, Michael. / The PlantsP and PlantsT functional genomics databases. In: Nucleic Acids Research. 2003 ; Vol. 31, No. 1. pp. 342-344.
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